Data transmission using DNA oligomers

• US 6,537,747 B1
• Filed: 01/28/1999
• Issued: 03/25/2003
• Est. Priority Date: 02/03/1998
• Status: Expired due to Term

• Current Assignee: WSOU Investments, LLC (WSOU Holdings, LLC)
• Original Assignee: Lucent Technologies, Inc. (Nokia Corporation)
• Inventors: Yurke, Bernard, Mills, Jr., Allen P.
• Primary Examiner(s): FREDMAN, JEFFREY NORMAN
• Application Number:
  US09/238,888
• Time in Patent Office: 1,517 Days
• Field of Search: 435/6, 435/91.2, 536/23.1, 702/19, 702/20, 380/14, 380/28, 380/4, 380/5
• US Class Current: 506/43
• CPC Class Codes: B01J 19/0046 Sequential or parallel reactions, e.g. for the synthesis of polypeptides or polynucleotides; Apparatus and devices for combinatorial chemistry or for making molecular arrays synthesis methods per se C40B50/00
• CPC Class Codes: B01J 2219/00585 Parallel processes
• CPC Class Codes: B01J 2219/00596 Solid-phase processes
• CPC Class Codes: B01J 2219/00605 the compounds being directly bound or immobilised to solid supports
• CPC Class Codes: B01J 2219/00608 DNA chips
• CPC Class Codes: B01J 2219/00612 the surface being inorganic
• CPC Class Codes: B01J 2219/00617 by chemical means
• CPC Class Codes: B01J 2219/00621 by physical means, e.g. trenches, raised areas
• CPC Class Codes: B01J 2219/00626 Covalent
• CPC Class Codes: B01J 2219/00637 by coating it with another layer
• CPC Class Codes: B01J 2219/00641 the porous medium being continuous, e.g. porous oxide substrates
• CPC Class Codes: B01J 2219/00659 Two-dimensional arrays
• CPC Class Codes: B01J 2219/00722 Nucleotides
• CPC Class Codes: B82Y 10/00 Nanotechnology for information processing, storage or transmission, e.g. quantum computing or single electron logic
• CPC Class Codes: C40B 40/06 Libraries containing nucleotides or polynucleotides, or derivatives thereof
• CPC Class Codes: G06N 3/02 Neural networks
• CPC Class Codes: G06N 3/123 DNA computing

Abstract

The present invention is directed to methods for (a) encrypting information in the form of words, numbers, or graphical images, by obtaining a set of nucleic acid strands or nucleic acid analog strands having subunit sequences selected to represent the information, (b) transmitting the information by sending the nucleic acids or nucleic acid analogs to a recipient who possesses a key for decryption, and (c) using the key to decrypt the information and recover the words, numbers, or represented by the nucleic acids or nucleic acid analogs.

Claims

1. A method for encrypting a graphical image, comprising obtaining from an oligomer-storing device, by locally heating an oligomer storage depot of the oligomer-storing device, at least one cryptograph strand that is a nucleic acid strand, or nucleic acid analog strand comprising a set of contiguous nucleotide or nucleotide analog subunits, the sequence of which represents a two-dimensional array of digital values that define a graphical image.

2. The method of claim 1, further comprising providing a key for decryption that permits the recovery of the graphical image.

3. The method of claim 2, further comprising transmitting the at least one cryptograph strand.

4. The method of claim 2, further comprising recovering the graphical image.

5. The method of claim 4, wherein the step of recovering the graphical image comprises identifying the sequences of subunits of said cryptograph strand that represent the color or gray-scale value, and the array position, of each pixel of the image represented by said at least one cryptograph strand.

6. The method of claim 5, wherein the step of identifying comprises allowing multiple copies of said cryptograph strand to hybridize specifically to a nucleic acid hybridization probe array having at least one array site at which are attached single-stranded oligomers comprising a subunit sequence that hybridizes specifically to a sequence of subunits of said at least one cryptograph strand;

and determining the position of the at least one site in the hybridization array at which said cryptograph strand specifically hybridizes.

7. The method of claim 6, wherein there is 1:

1 positional correspondence between the digital values of the array that define the graphical image and the array sites of the nucleic acid hybridization array at which said cryptograph strands hybridize.

8. The method of claim 6, further comprising allowing said cryptograph strand to hybridize specifically to said oligomer attached to said at least one array site, and also to at least one signal oligomer comprising a detectable signaling moiety and a subunit sequence that hybridizes specifically to said at least one cryptograph strand;

and detecting the position of the at least one array site at which said signal oligomer is hybridized.

9. A method for encrypting information comprising:

obtaining from an oligomer-storing device, by locally heating an oligomer storage depot of the oligomer-storing device, two or more different cryptograph strands that together represent a body of information selected from the group consisting of the letters of the alphabet, words, phrases of a language, punctuation marks, musical notation, the numbers 0-9, mathematical and other symbols, mathematical vectors, formulas, and matrices, and sets of digital values that define monochrome, gray-scale, or colored graphical images,

wherein each of the different cryptograph strands is an oligonucleotide or oligonucleotide analog comprising a sequence of nucleotides or nucleotide analogs that represents a portion of the complete body of information, and further comprises a subunit sequence that identifies the relative position of the portion of the information represented by each of said cryptograph strands in the complete body of information.

10. The method of claim 9, wherein each cryptograph strand is an oligonucleotide or oligonucleotide analog of about 6 to 100 nucleotides or nucleotide analogs in length.

11. The method of claim 9, wherein each cryptograph strand is an oligonucleotide or oligonucleotide analog that comprises about 8 to about 50 nucleotides or nucleotide analogs that represent encrypted information.

12. The method of claim 11, wherein each cryptograph strand further comprises about 6 to 12 additional nucleotides or nucleotide analogs added at each end to permit amplification.

13. The method of claim 12, further comprising a step of amplifying the number of copies of the at least one cryptograph strand.

14. The method of claim 9, further comprising providing a key for decryption that permits recovery of the encrypted information.

15. The method of claim 14, further comprising transmitting the cryptograph strands.

16. The method of claim 15, comprising transmitting a solution in which the cryptograph strands are solutes.

17. The method of claim 15, comprising transmitting the cryptograph strands in dry form.

18. The method of claim 14, further comprising recovering the encrypted information by identifying the sequences of subunits of said cryptograph strands that represent the information string, and also identifying the relative position of the information represented by each of said cryptograph strands in the complete information string.

19. The method of claim 18, wherein the step of recovering the encrypted information comprises allowing multiple copies of the cryptograph strands to hybridize specifically to a nucleic acid hybridization array comprising an array of sites, at each of which are attached single-stranded oligomers comprising subunit sequences that hybridize specifically to subunit sequences of the cryptograph strands;

and determining the positions of sites in the hybridization array at which the cryptograph strands specifically hybridize.

20. The method of claim 18 wherein the encrypted information is a two-dimensional array of digital values that defines a graphical image;

and the step of recovering the graphical image comprises identifying subunit sequences of the cryptograph strands that represent the color or gray-scale value, and the array position, of each pixel of the image represented by the cryptograph strands.

21. The method of claim 19, wherein the encrypted information is a two-dimensional array of digital values that defines a graphical image;

and there is 1;

1 positional correspondence between the digital values of the array that defines the graphical image and the array sites of the nucleic acid hybridization array at which the cryptograph strands hybridize.

22. The method of claim 19, further comprising allowing the cryptograph strands to hybridize specifically to the oligomers attached to the array sites, and also to at least one signal oligomer comprising a detectable signaling moiety and a subunit sequence that hybridizes specifically to said cryptograph strands;

and detecting the position of the array sites at which the signal oligomer hybridizes.

23. The method of claim 9, wherein the cryptograph strands are an oligonucleotide or an oligonucleotide analog.

24. The method of claim 9, wherein the cryptograph strands are present in a double-stranded nucleic acid.

25. The method of claim 19, further comprising:

providing one or more bridging oligomers, each of which comprises two sequences of subunits that hybridize specifically and independently to an oligomer attached to an array site of the hybridization array, or to a cryptograph strand, or to another bridging oligomer;

allowing the oligomers attached to the array, the cryptograph strands, and the bridging oligomers to hybridize specifically to each other;

and detecting the position of the at least one array site at which the cryptograph strands are hybridized.

26. The method of claim 19, further comprising:

providing one or more bridging oligomers, each of which comprises two sequences of subunits that hybridize specifically and independently to an oligomer attached to an array site of the hybridization array, or to a cryptograph strand, or to another bridging oligomer, or to a signal oligomer;

providing at least one signal oligomer that comprises a detectable signaling moiety and a subunit sequence that hybridizes specifically to a bridging oligomer or to a cryptograph strand; and

allowing the oligomers attached to the array, the cryptograph strands, the bridging oligomers, and the signal oligomer to hybridize specifically to each other,

and detecting the position of the array sites at which the signal oligomer hybridizes.

27. A method for encrypting information, comprising:

releasing an oligomer that represents encrypted information from an oligomer-storing device by locally heating an oligomer storage depot of the oligomer-storing device;

the oligomer-storing device comprising a substrate that supports an array of oligomer storage depots, at each of which is attached a plurality of oligomers having a known subunit sequence, said oligomers being oligonucleotides and/or oligonucleotide analogs;

the oligomer that represents encrypted information being stored by being hybridized to complementary oligomers that are attached to at least one of the depots of the oligomer-storing device, and being released by locally heating the depot at which it is hybridized to denature double-stranded complexes of said depot and release stored oligomers without effecting significant denaturation of double-stranded complexes of unselected depots of the array; and

obtaining at least one cryptograph strand that is a nucleic acid strand or nucleic acid analog strand comprising a set of contiguous nucleotide or nucleotide analog subunits, the sequence of which represents one or more phrases, words, alphanumeric characters, or other symbols, and/or one or more digital values, and/or one or more pixels that define a graphical image, which at least one cryptograph strand comprises the oligomer that represents encrypted information that was released from the oligomer-storing device.